>input_sequence_66761
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-------------------------------------------------------ATGTCCATCGTGCATGTCTGTGTGC
AGTTGCTGTTTGGTGCTACTGCCGGGAAAGAAACTGTTCCAAGGGCACGTGCACAGTTGCACTCCTCCTTCAGTGATTCC
TTTGATGTATCTCAAGAGAGGATAGTGATAACGAACAGTTCTGGAGAGAAACTCATTGGTGTTTTGCACGAAGCTGGATC
TAAGGACATTGTAGTGTTATGCCATGGGTTTAGGTCATCAAAGGAAAGTAGAACCATAATGGGTCTTACTGATGCATTAA
CATCAGAGAAGATTAGTGTATTTCGGTTTGATTTTTCTGGCAATGGAGAAAGTGAAAGTACATTTCAGTATGGCAACTAC
TACAAAGAGGTGGATGATTTGCATAGTGTAATCCAGCATTTTAAGGAACACAAGCGTGATACTCGTGCTATTGCTGGCCA
CAGTAAGGGAGGAGATGTGGTCATCATCTATGGGTCCATGTATCAAGATGTATCTCGTATTATCAACATATCGGGCAGAT
TTGATCTGAAACGTGGAATTGCAGATCGTCTTGGCAGTGACTATATGGAAAGGATAAATCAACATGGTTTCATTGACGTG
GCACAGAAGACAGGACAGTTCATGTACCGTGTAACCAAAGAAAGTCTGATGGATCGTCTTAGGATAGATATGCAAAGTGC
ATGCATGTCTATTGACCCTAATTGCAGGGTCCTGACAGTTCACGGTTCTGAAGATGATGTTGTGCCATCGGAGGATGCTC
TGGAATTTCATAAATATATAGGCAACCATGAATTGCATATTATTGAGGGAGCTGATCATAGATATTCATCTCATCAGCTT
GAGTTGGCTAACATTGTAATGAAATTTGTTACATCTGGCTGA--------------------------------------
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--------------------
>chr4B_1_TraesCS4B01G263200
GATAAGCATGGTGACTAGTGGTATTATGCGGTGTAAAATTCTTCACGGGTTCTTGGTTAGAAAAATGGTGACTGCATTTA
AGTCGGTGCACCTTAAGCATTTGACTTGTAAATTGTAATAAAATGTTGCTGGTGTGAGTGTGTTTTGGATGTGGGAATGC
TGTGTCACCTTAGATAACATGAAGTCCTTAGTGTTTCACTTTGGCTGTTAATGAGTTATGCCGAGTTACTACCACTAGCC
ATCATGTTGTCTGAGAGGTTGCACATGAAATATTGAAATGTGGTGATATACATTTTGAAGTCTTGCCTTTTCAACCAAGT
GATGATGTCATCCAAGTTATG-TGTGGGTAACAGCGGCGAAGTGTTTCAT------------------------------
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----------------GTTGTGCCCTTTACCTGTCTATATCCGTTCTTGTTGAACACTTTCTCCTCTCACTCTTGTA-GT
TTCTCCATGTCGACATTCTTCTAAATTCTTCTCTA-------------------------------------------AT
CTTCTGTTCTATATTTGCCCAGCCATTATTATTGCATATAATATATACAAATATTTTGTAACGATATATCAGCATTATCC
TTTCTGTGATTAGCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNTATCCCTTTTAGGAATAATCTAGGGATGGTCGCTTCTCTTTTGTGGGAACTCCTTAGATTGTGTTCTAACTGCTGAC
TTCTAATATTGTTCGTGTTGGTCAAGTAGATTTTGTGTTACATTAGGTTAGTACTTGATAGTAATCTGCCAGTGATTACT
C---CCTAACATTATGTGCTTCCTTTCTTGCTT-CACGTTTGTTATTTGTTAAGCATGTCCATCGTGCATGTCTGTGTGC
AGTTGCTGTTTGGTGCTACTGCCGGGAAAGAAACTGTTCCAAGGGCACGTGCACAGTTGCACTCCTCCTTCAGTGATTCC
TTTGATGTATCTCAAGAGAGGATAGTGATAACGAACAGTTCTGGAGAGAAACTCATTGGTGTTTTGCACGAAGCTGGATC
TAAGGACATTGTAGTGTTATGCCATGGGTTTAGGTCATCAAAGGAAAGTAGAACCATAATGGGTCTTACTGATGCATTAA
CATCAGAGAAGATTAGTGTATTTCGGTTTGATTTTTCTGGCAATGGAGAAAGTGAAAGTACATTTCAGTATGGCAACTAC
TACAAAGAGGTGGATGATTTGCATAGTGTAATCCAGCATTTTAAGGAACACAAGCGTGATACTCGTGCTATTGCTGGCCA
CAGTAAGGGAGGAGATGTGGTCATCATCTATGGGTCCATGTATCAAGATGTATCTCGTATTATCAACATATCGGGCAGAT
TTGATCTGAAACGTGGAATTGCAGATCGTCTTGGCAGTGACTATATGGAAAGGATAAATCAACATGGTTTCATTGACGTG
GCACAGAAGACAGGACAGTTCATGTACCGTGTAACCAAAGAAAGTCTGATGGATCGTCTTAGGATAGATATGCAAAGTGC
ATGCATGTCTATTGACCCTAATTGCAGGGTCCTGACAGTTCACGGTTCTGAAGATGATGTTGTGCCATCGGAGGATGCTC
TGGAATTTCATAAATATATAGGCAACCATGAATTGCATATTATTGAGGGAGCTGATCATAGATATTCATCTCATCAGCTT
GAGTTGGCTAACATTGTAATGAAATTTGTTACATCTGGCTGAAAGAATGATGTTGGAACAAATGTAACCATGATGATGCA
TGTTTGACCCAATGTTTTTGTGATTGGCGTTGCCATCAATTTCTTTCCAACATGTTACAAAATTACCCTGTCAAATTTAG
TTGAGGTGTGAAGTGTTCATGCTTCTGGCACAGTTGATTGTATTTCCATCATACCTTAGTCAACTGCATTTAAA------
--------GTTTCATTGA-GTCACTTGCAGAAGTTGCTGTTCTCTGTAGAACTAACACCATTGG-TATCACTATTGTTTG
TTTGCAGCTGGCACCCAAACAGAAGATCAGAATCAAGCTGAGGTCTTACTGGGTGCCATTGATCGAGGACTCCTGCAAGC
AGATCATTGAAGCTGCAAAAACAACTAATGCCAAGACCATGGGTCCTGTTCCTCTGCCGACCAAGAAGAGAATATACTGT
GTGCTCAACTCTCCCCACGTGCACAAAGATTCAAGGTTCCACTTTGAGATCCGGACACACCAGCGGTTGATTGATATCAT
GTACCCGACCGCCCAGACGATTGACTCGTTGATGCAGCTCCAGCTTCCCGCGGGGGTGGATGTCGAGGTTAAGCTATGAT
CCCACTAGAGCTGAACTCTTTAAAATTCTATGTCATGTAATGCTCTTTTCTGCAGACTTCCTAGTTGGTCGATC--TTTT
TGCTGTCTGAGACTTGAAACATATGTAGAGCCTGTAACACGAAAAAACATGTTCAGATATGAAATATCATGCAGTTAAAG
AAGTACCGAGCGAGGTTATTTGTTTCCTGTCCCAGAACTGATTCATCTAGAAATTGCTCCATTCATACTAGTTGCACAGA
TTTTGTGCGCTGATTCAACATATTGGCAAAGCTTTCTTATTTCTCCTGAAAATAGTAGAAGTTCGCAAGCTAGTTTGATC
AGGGCATGTTCAAAGTTTTTGTTGGAATTTTATCATGTTCTATGTTTTGACCTAAAAACCACGGAAAGCTGTGTCTGATT
GGTCTGTAGCCAGTCTAGCA
>chr4D_121
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----------------------------------------AAATGTTGCTGGTGTGAGTGTGTTTTGGATGTGGGACTGC
TGTGTCACCTTAGATAACGTGAAGTCCTTACTGTTTTGCTTTCGATGTTACTGAGTTATGCCGTGTTAC---CACTAGCC
ATCACGCTATCTAAGAGGTTGTACACGAAAT--------GTAGTGATGTATATTTTTAAGTCTTCCCTTTTCAACCAAGC
GAGGATGATGCCCAAGTTAGTATGTGGTTAACAGTGTTGAAGTCTTCCACGTTCAACTGAATGCTAAAATGGTCTCTCGA
TGAAATGGCTAACTGTATCTGACCATGACTCCATCTCATGTATCTTTCTTAGAATAGTCGGCCTTGTGGTTTCGAAGCTT
AGTTTAAAAAATTTCAGTTGTGCCCTTAACCTGTCTATCACCGTTCTTGTTGAACACCTTGTTCTCTCACTCCTGTGGGT
TTCTCCATGTCAACGGTCTTCTGAATTTTCTCTAACCACCTGTCTTAAATTCTCAAATGGTTTCCCATTCTTTTTATTAT
CTTCTGCTATATATTTGCTCAACCATTATTCGTGCATAG-----ATGCAAAGATTTTATAACACCAA--CAGCATCATTC
TTTCTGCGGTTAGCTCTTATTGCCTTTTCTTTCTTGGGACTGATTCGCTAGGTTTGTGGGCTGAGAAAAAGTAGGCTATC
ACCAAAACTGAT--------------------------------------------------------------------
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---TATCCCTCTTAGGAATAATCTATGGATGGTTGCTTATCTTTTGCGGGAACTCCTTAGATTGTGTTCTAACTGCTGAC
TTCTAATATTGTTGGTGTTGGTTAAGTAGAGTTTGTGTTGCATTAGGT----------TAGTAATCTGCCAGTGATTACT
ACTGCCTAACATTATGTGCTTCCTTTCTTGCTTGCACGTTTGTCAGTTCTTAAGCATGTCCATCGTACATGTCTGTGTGC
AGTTACTGTTTGGTGCTACTGCCGGGAAAGAAACTGTTTCAAGGGCACGTGCACAGTCGCACTCGTCCTTCAGTGATTCC
TTCAATGTATCTCAAGAGAGGATAGTGATAACGAACAGTTCTGGAGAGAAACTCATTGGTGTTTTGCACGAAGCTGGATC
TAAGGACATTGTAGTGTTATGCCATGGGTTTAGGTCATCAAAGGAAAGTAGAACCATAATGGGTCTTACTGATGCATTAA
CATCAGAGAAGATTAGTGTATTTCAGTTTGATTTTTCTGGCAACGGAGAAAGTGAAGGTACATTTCAGTATGGCAACTAC
TATAAAGAGGTGGATGACTTGCATGCTGTAATCCAGCATTTTAAGGAACACAAGCGTGATACTCGTGCTATTGCTGGCCA
CAGTAAGGGAGGAGATGTGGTCATCATCTATGCGTCCATGTATCAAGATGTATCTCGTGTTATCAACATATCGGGCAGAT
TTGATCTGAAACGTGGAATTGCAGATCGTCTTGGCAGTGACTATATGGAAAGGATAAATCAACATGGTTTCATTGACGTG
GCACAGAAAACAGGACAGTTCATGTACCGTGTAACCAAAGAAAGTCTGATGGACCGTCTTAGGATAGATATGCAAAGTGC
ATGCATGTCTATTGGCCCTAACTGCAGGGTCCTGACAGTTCATGGTTCTGACGATGATGTTGTGCCATCGGAGGATGCTC
TGGAATTTCATAAATATATAGGCAACCACGAAGTGCATATTATTGAAGGAGCTGATCATAGATATTCATCTCATCGGCTT
GAGTTGGCTAACATTGTATTGAAATTTGTTACATCTGGCTGACAAAACGATGTTGGAACAAATGTAACCATGACAATGCA
TGTTTGACCCAATG-TTTTGTGATTGGCGTTGCCATCAATTTCTTTCCGACATGCTACAAAATTACCCTATCAACTTTAG
TTCAAGTGTGAAGTGTTCATGCTTCTGGCACTGTTGATTGTATTTCCATCATACCTTAGTCAACTGCATATTTTCATTTG
GTGTTTCTGTTTCATTGGGT--ACCTGCAGAAGTTGCTGTTCTCTGTAGAACTAACACTATTGGGTATCACTATTTTCTG
CTTGCAGCTGGCACCCAAGCAGAAGATCAGAATCAAGCTGAGGTCTTACTGGGTGCCATTGATAGAGGACTCCTGCAAGC
AGATCATTGAAGCTGCAAAGACAACTAATGCCAAGACCATGGGTCCTGTTCCTCTGCCAACCAAGAAGAGAATATACTGT
GTGCTCAACTCTCCCCATGTGCACAAAGATTCAAGGTTCCACTTTGAGATCCGGACACACCAGCGGTTGATTGATATCAT
GTACCCGACCGCCCAGACGATCGACTCATTGATGCAGCTCCAGCTCCCCGCCGGGGTGGATGTCGAGGTTAAGCTATGAT
CCCACTAGAGCTGAACCCTTTAAAATTCTGTGTCATGTAATGCTCCTTTCTGCAGACTTTCTAGTTGGTCGATC--TTTT
TGCTGTCTGAGACTTGAAACATATGTAGAGCCTGTAACACGAAAAAACATGTTCAGATATGGAATATCATGCAGTTAAAG
AAGTACCGAGCAAATGTTATTTG---------------------------------------------------------
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>chr4A_793
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---TATCCCTCTCAGGAATAATCTATGGATGGTTGCTTATCTTTTGTGGGAACTCCTTAGATTGTGTTCTAACTGCTGAC
TTCTAATATTGTTGGTGTTGGTGAAGTAGATTTTGTGTTACATTTGGT----------TAGTAATCTGCCAGTGATTACT
ACTGCCTAACATTATGTGCTTCCTTTCTTGCTTGCACGTTTGTCAGTTCTTAAGCATGTCCATCGTACATGTCTGCGTGC
AGTTACTGTTTGGTGCTACTGCCGGGAAAGAAACTGTTTCAAGGGCACGTGCGCAGTCGCACTCGTCCTTCAGTGATTCC
TTCAATGTATCTCAAGAGAGGATAGTGATAACCAACAGTTCTGGAGAGAAACTCATTGGTGTTTTGCACGAAGCTGGATC
TAAGGACATTGTAGTGTTATGCCATGGGTTTAGGTCATCAAAGGAAAGTAGAACCATAATGGGTCTTACTGATGCATTAA
CATCAGAGAAGATTAGTGTATTTCAGTTTGATTTTTCTGGCAATGGAGAAAGTGAAGGTACATTTCAGTATGGCAACTAC
TATAAAGAGGTGGATGATTTGCATAATGTAATCCAGCATTTTAAGGAACACAAGCGTGATACTCGTGCTATTGCTGGCCA
CAGTAAGGGAGGAGATGTGGTCATCATCTATGCGTCCATGTATCAAGATGTATCTCGTGTAATCAACATATCGGGCAGAT
TTGATCTGAAACGTGGAATTGCAGATCGTCTTGGCGGTGACTATATGGAAAGGATAAATCAACATGGTTTCATTGACGTG
GCACAGAAAACAGGACAGTTCATGTACCGTGTAACCAAAGAAAGTCTGATGGACCGTCTTAGCATAGATATGCAAAGTGC
ATGCATGTCTATTGACCCTAATTGCAGGGTCCTGACAGTTCACGGTTCTGACGATGATGTTGTGCCATCAGAGGATGCTC
TGGAATTTCATAAATATATAGGCAACCACGAAGTGCATATTATTGAAGGAGCTGATCATAGATATTCATCTCATCGGCTT
GAGCTGGCTAACATTGTAATGAAATTTGTTACATCTGTCTGACAGAACGATGTTGGAACAAATGTAACCATGACGATGCA
TGTTTGACCAAATG-TTTTTGTG--------------------------------------ATTGCCCTATCAAATTTAG
TTGAAGTGCGAAGTTTTCATGCTTCTGGCACTATTGGCTGTATTTCCATCATACCTTAGTCAACTGCATATTTTCATTTG
GTGTTTCTGTTTCATTGGGGTCACCTGCAGAAGTTGCTGTTCTCTGTAGAACTAACACTATTGGGTATCAACATTTTATG
TTTGCAGCTGGCACCTAAGCAGAAGATCAGAATCAAGCTGAGGTCTTACTGGGTGCCATTGATCGAGGACTCCTGCAAGC
AGATCATCGAAGCTGCAAAGACAACTAATGCCAAGACCATGGGTCCTGTTCCTCTGCCAACCAAGAAGAGAATATACTGT
GTGCTCAACTCTCCCCATGTGCACAAAGATTCAAGGTTCCACTTCGAGATCCGGACACACCAGCGGTTGATTGATATCAT
GTACCCGACTGCCCAGACAATCGATTCATTGATGCAGCTCCAGCTCCCCGCCGGGGTGGATGTTGAGGTTAAGCTATGAT
CCCACTAGAGCTGAACTCTTTAAAATTCTATGTCATGTTATGCTCTTTTCTGCAGGCTTCCTAGTTGACCGATCTTTTTT
TGCTGTCTGAGACTTGAAACATATGTAGAGCCTGTAACACGGAAAAACATGTTCAGATATGAAATATCATGCAGTTAAAG
AAGTATCGAGCAAGGTTATTTG----------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------S---
------------------S-----------S-----SS----S-S-----S------------S-----SSS--------
----S-S-S---S--------S---S-----SSSSSSSS--S-----S--S-----S-------S--------------S
--S----SSSS--------SS------S------S-SS-----S--S--S------------------------------
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---------------------------S----------SS-----------------S--S-S---------S---S---
-----------S--SS------S----S-SSSSS----------------------------------------------
------S-S---------S--S--------SS------SSSSSS--S----S-----S----SSS-SSS------S--S-
------S-S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSS-------S--------------S-------S----S-----------------------------------------
-------------S--------S-------------------------SSSSSSSSSS----------------------
S------------------------------------------S-S--S-----------------S-------------
----S---------------------------------S------------------S------S---------------
--SS----------------------------------------------------------------------------
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------------------------S-------------------------------S-----------------------
--S----------------------S------------------------------------------------------
--------------------------------S-------------------------S---------------------
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--------S--------------------------------------------S--------------------------
---------------------------------------------------S----------------------------
----------------------------S---S-------------S----------------------------S----
------------------------------------------S----S-------------------------S------
--------------S---------------------------------S-----S--------------S----------
----S--------------------------S-------------------------------------S-SSS------
-----------------S------S---------------------------------S----------------S-S--
------------------S-------------------------------------------------------------
-------------------S--------------------------------------S---------------------
-----------------S--------------------------------------------------------------
---------------------S-----S-----------------S-----S----------------------------
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-----------S----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS
>forward_99
-------------------------------------------------------------------------------A
AGTCGGTGCACCTTAAGCA-------------------------------------------------------------
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>reverse_1205
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----GCTGTTTGGTGCTACTGCC---------------------------------------------------------
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>forward_100
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AGTCGGTGCACCTTAAGCAT------------------------------------------------------------
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>reverse_1258
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---------------------------------------------------------TGCACTCCTCCTTCAGTGAT---
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>forward_358
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------------------TATGTGTGGGTAACAGCGGC------------------------------------------
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>reverse_1769
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--------GACAGGACAGTTCATGTACCGT--------------------------------------------------
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>forward_367
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---------------------------GTAACAGCGGCGAAGTGTTT---------------------------------
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>reverse_2165
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----GGTGTGAAGTGTTCATGCTTCT------------------------------------------------------
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--------------------
